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sc-PDB

An Annotated Database of Druggable Binding Sites from the Protein DataBank

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Distribution of Binding site similarity measured by Shaper
You can zoom onto the graph by using the mouse to make a selection

Binding Sites are compared using Shaper.
For more information, please see the following publication: Desaphy J. et al. Comparison and Druggability Prediction of protein-Ligand Binding sites from pharmacophore-annotated cavity shapes J. Chem. Inf. Model., 2012, 52(8), pp2287-2299
Binding Sites are considered as similar when the similarity value is greater than 0.44

Reference Protein Data Bank Entry :
PDB IDHETUniprot NameEC Number
5j3wFMNSensory box protein

Complex with similar binding sites

PDB ID HET Uniprot Name EC Number Binding Site
Similarity		 Align
5j3wFMNSensory box protein/1.000
5j4eFMNSensory box protein/0.830
3sw1FMNSensory box protein/0.524
4wujFMNGlycoside hydrolase family 15, cellulose signaling associated protein envoy/0.490
4hj4FMNLOV protein/0.488
1n9nFMNPutative blue light receptor/0.487
4hiaFMNLOV protein/0.484
2pd7FADVivid PAS protein VVD/0.483
1tcxIM1Gag-Pol polyprotein3.4.23.160.478
4a4vYFDPeroxisome proliferator-activated receptor gamma/0.476
2z6dFMNPhototropin-22.7.11.10.475
4hj6FMNLOV protein/0.473
2xk9XK9Serine/threonine-protein kinase Chk22.7.11.10.470
2ycqUPXSerine/threonine-protein kinase Chk22.7.11.10.470
2q61SF1Peroxisome proliferator-activated receptor gamma/0.468
2w7xD1ASerine/threonine-protein kinase Chk22.7.11.10.468
2yfeYFEPeroxisome proliferator-activated receptor gamma/0.468
1d4lPI9Gag-Pol polyprotein3.4.23.160.463
3hjiFADVivid PAS protein VVD/0.462
3d72FADVivid PAS protein VVD/0.461
3ekv478Gag-Pol polyprotein3.4.23.160.461
1i7iAZ2Peroxisome proliferator-activated receptor gamma/0.460
3nbvANPKetohexokinase/0.460
4eetFMNPhototropin-22.7.11.10.459
1ec2BEJGag-Pol polyprotein3.4.23.160.458
2bpxMK1Gag-Pol polyprotein3.4.23.160.457
1fej2NCGag-Pol polyprotein3.4.23.160.456
1n9lFMNPutative blue light receptor/0.456
2pd8FADVivid PAS protein VVD/0.456
2ycrHCWSerine/threonine-protein kinase Chk22.7.11.10.456
1hxwRITGag-Pol polyprotein/0.455
1w5xBE5Gag-Pol polyprotein3.4.23.160.455
1a8k0Q4Gag-Pol polyprotein3.4.23.160.454
2p4yC03Peroxisome proliferator-activated receptor gamma/0.454
2pdtFADVivid PAS protein VVD/0.454
1a8g2Z4Gag-Pol polyprotein3.4.23.160.453
2nuaCOASuccinate--CoA ligase [ADP-forming] subunit alpha6.2.1.50.453
2wkz5AHGag-Pol polyprotein/0.453
3jvwDMPGag-Pol polyprotein3.4.23.160.452
3nu3478Gag-Pol polyprotein3.4.23.160.452
3sa9A68Protease/0.452
3qaaG04Gag-Pol polyprotein3.4.23.160.451
2c0tL3GTyrosine-protein kinase HCK2.7.10.20.450
3ogqAB1Pol polyprotein/0.450
2pym1UNGag-Pol polyprotein3.4.23.160.449
2xclANPPhosphoribosylamine--glycine ligase/0.449
2z6cFMNPhototropin-12.7.11.10.449
3nwyGTPUridylate kinase/0.449
4eesFMNPhototropin-22.7.11.10.449
1g35AHFGag-Pol polyprotein3.4.23.160.448
1qbsDMPGag-Pol polyprotein3.4.23.160.448
2w0jZATSerine/threonine-protein kinase Chk22.7.11.10.448
3aidARQGag-Pol polyprotein3.4.23.160.448
3kddJZQGag-Pol polyprotein3.4.23.160.448
3s85LK0Gag-Pol polyprotein/0.448
5djuFMNNPH1-2/0.448
2hw1ANPKetohexokinase/0.447
2qhcAB1Protease/0.447
3cylVITBasic phospholipase A2 homolog piratoxin-2/0.447
4hj3FMNLOV protein/0.447
4hnbFMNLOV protein/0.447
2i4jDRJPeroxisome proliferator-activated receptor gamma/0.446
3gi6D78Gag-Pol polyprotein/0.446
1ebwBEIGag-Pol polyprotein3.4.23.160.445
3ekwDR7Gag-Pol polyprotein3.4.23.160.445
3t50FMNBlue-light-activated histidine kinase2.7.13.30.445
4a6bQG8Gag-Pol polyprotein3.4.23.160.445
4id71G0Activated CDC42 kinase 1/0.445
4ki8ADP60 kDa chaperonin/0.445
4ej7ATPAminoglycoside 3'-phosphotransferase AphA1-IAB/0.444
2pr5FMNBlue-light photoreceptor/0.443
2qi7MZ9Gag-Pol polyprotein/0.443
4r38RBFBlue-light-activated histidine kinase 22.7.13.30.443
1hshMK1Gag-Pol polyprotein/0.442
1meuDMPGag-Pol polyprotein3.4.23.160.442
1wbmBLLPol protein/0.442
1xl5190Gag-Pol polyprotein3.4.23.160.442
3bgbLJGGag-Pol polyprotein3.4.23.160.442
3mws017Pol protein/0.442
3sa5A69Protease/0.442
4c4f7CEDual specificity protein kinase TTK2.7.12.10.442
1d4hBEHGag-Pol polyprotein3.4.23.160.441
1ebyBEBGag-Pol polyprotein3.4.23.160.441
1ec0BEDGag-Pol polyprotein3.4.23.160.441
1hwr216Gag-Pol polyprotein3.4.23.160.441
1idb0DOGag-Pol polyprotein/0.441
1qbrXV6Gag-Pol polyprotein3.4.23.160.441
2c4cFAD[F-actin]-methionine sulfoxide oxidase MICAL11.14.130.441
3ggxGGXGag-Pol polyprotein/0.441
3s54017Protease/0.441
1g2kNM1Gag-Pol polyprotein3.4.23.160.440
2i4pDRHPeroxisome proliferator-activated receptor gamma/0.440
2i5bADPPyridoxine kinase/0.440
2qnnQN1Gag-Pol polyprotein3.4.23.160.440
2znoS44Peroxisome proliferator-activated receptor gamma/0.440
3nls016Gag-Pol polyprotein3.4.23.160.440
3oxv478Gag-Pol polyprotein3.4.23.160.440
7upjINUGag-Pol polyprotein3.4.23.160.440